ARFM_ARATH
ID ARFM_ARATH Reviewed; 621 AA.
AC Q9FX25; Q5IRM9; Q5IRX4; Q9XIC3;
DT 26-APR-2004, integrated into UniProtKB/Swiss-Prot.
DT 29-MAY-2007, sequence version 3.
DT 03-AUG-2022, entry version 122.
DE RecName: Full=Auxin response factor 13;
GN Name=ARF13; OrderedLocusNames=At1g34170; ORFNames=F12G12.1, F23M19.15;
OS Arabidopsis thaliana (Mouse-ear cress).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae;
OC rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis.
OX NCBI_TaxID=3702;
RN [1]
RP NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 2 AND 3).
RC STRAIN=cv. Columbia;
RX PubMed=15659631; DOI=10.1105/tpc.104.028316;
RA Okushima Y., Overvoorde P.J., Arima K., Alonso J.M., Chan A., Chang C.,
RA Ecker J.R., Hughes B., Lui A., Nguyen D., Onodera C., Quach H., Smith A.,
RA Yu G., Theologis A.;
RT "Functional genomic analysis of the AUXIN RESPONSE FACTOR gene family
RT members in Arabidopsis thaliana: unique and overlapping functions of ARF7
RT and ARF19.";
RL Plant Cell 17:444-463(2005).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=11130712; DOI=10.1038/35048500;
RA Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O.,
RA Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E.,
RA Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K., Conn L.,
RA Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P.,
RA Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D.,
RA Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J.,
RA Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L.,
RA Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A.,
RA Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A.,
RA Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M.,
RA Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M.,
RA Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P.,
RA Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D.,
RA Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D.,
RA Yu G., Fraser C.M., Venter J.C., Davis R.W.;
RT "Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana.";
RL Nature 408:816-820(2000).
RN [3]
RP GENOME REANNOTATION.
RC STRAIN=cv. Columbia;
RX PubMed=27862469; DOI=10.1111/tpj.13415;
RA Cheng C.Y., Krishnakumar V., Chan A.P., Thibaud-Nissen F., Schobel S.,
RA Town C.D.;
RT "Araport11: a complete reannotation of the Arabidopsis thaliana reference
RT genome.";
RL Plant J. 89:789-804(2017).
RN [4]
RP GENE FAMILY, NOMENCLATURE, AND FUNCTION.
RX PubMed=12036261; DOI=10.1023/a:1015207114117;
RA Hagen G., Guilfoyle T.J.;
RT "Auxin-responsive gene expression: genes, promoters and regulatory
RT factors.";
RL Plant Mol. Biol. 49:373-385(2002).
RN [5]
RP GENE FAMILY.
RX PubMed=18986826; DOI=10.1016/j.tplants.2008.09.006;
RA Swaminathan K., Peterson K., Jack T.;
RT "The plant B3 superfamily.";
RL Trends Plant Sci. 13:647-655(2008).
CC -!- FUNCTION: Auxin response factors (ARFs) are transcriptional factors
CC that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the
CC auxin-responsive promoter elements (AuxREs). Could act as
CC transcriptional activator or repressor. Formation of heterodimers with
CC Aux/IAA proteins may alter their ability to modulate early auxin
CC response genes expression. {ECO:0000269|PubMed:12036261}.
CC -!- SUBUNIT: Homodimers and heterodimers. {ECO:0000250}.
CC -!- SUBCELLULAR LOCATION: Nucleus.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=3;
CC Name=1;
CC IsoId=Q9FX25-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q9FX25-2; Sequence=VSP_025787, VSP_025788;
CC Name=3;
CC IsoId=Q9FX25-3; Sequence=VSP_025786, VSP_025787, VSP_025788;
CC -!- DOMAIN: Interactions between auxin response factors (ARFs) and Aux/IAA
CC proteins occur through their C-terminal dimerization domains III and
CC IV.
CC -!- SIMILARITY: Belongs to the ARF family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAD39616.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=AAG12520.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC ---------------------------------------------------------------------------
CC Copyrighted by the UniProt Consortium, see https://www.uniprot.org/terms
CC Distributed under the Creative Commons Attribution (CC BY 4.0) License
CC ---------------------------------------------------------------------------
DR EMBL; AY669793; AAT67077.1; -; mRNA.
DR EMBL; AY680406; AAT77165.1; -; mRNA.
DR EMBL; AC007454; AAD39616.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AC015446; AAG12520.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002684; AEE31679.1; -; Genomic_DNA.
DR EMBL; CP002684; AEE31680.1; -; Genomic_DNA.
DR PIR; H86465; H86465.
DR RefSeq; NP_001031139.1; NM_001036062.1. [Q9FX25-3]
DR RefSeq; NP_174679.3; NM_103140.3. [Q9FX25-2]
DR AlphaFoldDB; Q9FX25; -.
DR SMR; Q9FX25; -.
DR BioGRID; 25548; 2.
DR IntAct; Q9FX25; 1.
DR PeptideAtlas; Q9FX25; -.
DR PRIDE; Q9FX25; -.
DR EnsemblPlants; AT1G34170.1; AT1G34170.1; AT1G34170. [Q9FX25-2]
DR EnsemblPlants; AT1G34170.2; AT1G34170.2; AT1G34170. [Q9FX25-3]
DR GeneID; 840316; -.
DR Gramene; AT1G34170.1; AT1G34170.1; AT1G34170. [Q9FX25-2]
DR Gramene; AT1G34170.2; AT1G34170.2; AT1G34170. [Q9FX25-3]
DR KEGG; ath:AT1G34170; -.
DR Araport; AT1G34170; -.
DR PhylomeDB; Q9FX25; -.
DR PRO; PR:Q9FX25; -.
DR Proteomes; UP000006548; Chromosome 1.
DR ExpressionAtlas; Q9FX25; differential.
DR Genevisible; Q9FX25; AT.
DR GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0009734; P:auxin-activated signaling pathway; IEA:UniProtKB-KW.
DR GO; GO:0006355; P:regulation of transcription, DNA-templated; IEA:InterPro.
DR CDD; cd10017; B3_DNA; 1.
DR Gene3D; 2.40.330.10; -; 1.
DR InterPro; IPR010525; ARF_dom.
DR InterPro; IPR044835; ARF_plant.
DR InterPro; IPR033389; AUX/IAA_dom.
DR InterPro; IPR003340; B3_DNA-bd.
DR InterPro; IPR015300; DNA-bd_pseudobarrel_sf.
DR InterPro; IPR000270; PB1_dom.
DR PANTHER; PTHR31384; PTHR31384; 1.
DR Pfam; PF02309; AUX_IAA; 1.
DR Pfam; PF06507; Auxin_resp; 1.
DR Pfam; PF02362; B3; 1.
DR SMART; SM01019; B3; 1.
DR SUPFAM; SSF101936; SSF101936; 1.
DR PROSITE; PS50863; B3; 1.
DR PROSITE; PS51745; PB1; 1.
PE 2: Evidence at transcript level;
KW Alternative splicing; Auxin signaling pathway; DNA-binding; Nucleus;
KW Reference proteome; Transcription; Transcription regulation.
FT CHAIN 1..621
FT /note="Auxin response factor 13"
FT /id="PRO_0000111517"
FT DOMAIN 508..600
FT /note="PB1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01081"
FT DNA_BIND 124..228
FT /note="TF-B3"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00326"
FT VAR_SEQ 269..294
FT /note="Missing (in isoform 3)"
FT /evidence="ECO:0000303|PubMed:15659631"
FT /id="VSP_025786"
FT VAR_SEQ 481..505
FT /note="LPQDKKFDQTQPLRSPKEVQSTEFN -> EISKLKNQKATTSCLKIKSLTKP
FT NL (in isoform 2 and isoform 3)"
FT /evidence="ECO:0000303|PubMed:15659631"
FT /id="VSP_025787"
FT VAR_SEQ 506..621
FT /note="Missing (in isoform 2 and isoform 3)"
FT /evidence="ECO:0000303|PubMed:15659631"
FT /id="VSP_025788"
SQ SEQUENCE 621 AA; 70995 MW; 7876C26E55A58AAF CRC64;
MENNGEMNAQ PELSVDITKT YMYEKLWNIC AGPLCVLPKP GEKVYYFPQG HIELIENSTR
DELDHIRPIF DLPSKLRCRV VAIDRKVDKN TDEVYAQISL MPDTTEVMTH NTTMDTRRPI
VYFFSKILTA SDVSLSGGLI IPKQYAIECF PPLDMSQPIS TQNLVAKDLY GQEWSFKHVF
RGTPQRHMFT SGGGWSVFAT TKRLIVGDIF VLLRGENGEL RFGIRRAKHQ QGHIPSSVIS
ANCMQHGVIA SVVNAFKTKC MFNVVYKPSS SQFVISYDKF VDAMNNNYIV GSRFRMQFEG
KDFSEKRYDG TIIGVNDMSP HWKDSEWRSL KVQWDELSPF LRPNQVSPWD IEHLIPSSDI
SQSSLKKKKH WLQLNEIGAT LSNLWTCQEI GQRSMNSPIS VPEFSYPNAI EDSKFLSGLL
LNHSLLAIPN ENYNSDQMIQ PRKEDITTEA TTSCLLFGVD LTKVSKSKDS ICPIESCKKS
LPQDKKFDQT QPLRSPKEVQ STEFNFTRSR IKVHMQGVAI SRAVDLTAMH GYNQLIQKLE
ELFDLKDELR TRNQWEIVFT NNEGAEMLVG DDPWPEFCNM AKRIFICSKE EIKKMKLKNK
FFQPESKALT SSDVPPNVTD N
